TSSC2 (tumor suppressing subtransferable candidate 2 (pseudogene)) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: TSSC2 (tumor suppressing subtransferable candidate 2 (pseudogene)) Homo sapiens
Analyze
Symbol: TSSC2
Name: tumor suppressing subtransferable candidate 2 (pseudogene)
RGD ID: 1348033
HGNC Page HGNC:12384
Description: INTERACTS WITH acrylamide; bisphenol A; fulvestrant
Type: pseudo (Ensembl: transcribed_unprocessed_pseudogene)
RefSeq Status: PROVISIONAL
Previously known as: tumor suppressing subtransferable candidate 2 pseudogene
Related Functional Gene: ALG1  
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38113,380,961 - 3,409,148 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl113,401,759 - 3,408,810 (+)EnsemblGRCh38hg38GRCh38
GRCh37113,402,191 - 3,430,378 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36113,377,187 - 3,388,128 (+)NCBINCBI36Build 36hg18NCBI36
Celera113,391,793 - 3,419,987 (+)NCBICelera
Cytogenetic Map11p15.4NCBI
HuRef113,140,562 - 3,168,757 (+)NCBIHuRef
CHM1_1113,401,190 - 3,429,379 (+)NCBICHM1_1
T2T-CHM13v2.0113,426,355 - 3,454,559 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:9403053   PMID:14702039   PMID:15146197   PMID:16344560  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 11p15.5-15.4(chr11:196966-3624139)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053592]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053592]|See cases [RCV000053592] Chr11:196966..3624139 [GRCh38]
Chr11:196966..3645369 [GRCh37]
Chr11:186966..3601945 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1291
Count of miRNA genes:627
Interacting mature miRNAs:705
Transcripts:ENST00000450217, ENST00000526284, ENST00000526488, ENST00000529482, ENST00000530366, ENST00000533775
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 49 135 4 22 212 30 16 100 34 1 44 5 2
Low 2303 1677 1145 195 649 104 3345 1127 1243 306 1158 1551 103 1154 2035 2
Below cutoff 81 955 558 410 790 344 789 1026 2441 111 192 24 68 6 738

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000450217
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,401,759 - 3,408,810 (+)Ensembl
RefSeq Acc Id: ENST00000526284
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,978 - 3,398,090 (+)Ensembl
RefSeq Acc Id: ENST00000526488
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,383,462 - 3,397,239 (+)Ensembl
RefSeq Acc Id: ENST00000529482
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,961 - 3,408,978 (+)Ensembl
RefSeq Acc Id: ENST00000530366
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,993 - 3,384,411 (+)Ensembl
RefSeq Acc Id: ENST00000533775
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,961 - 3,408,981 (+)Ensembl
RefSeq Acc Id: ENST00000685130
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,961 - 3,408,976 (+)Ensembl
RefSeq Acc Id: ENST00000685598
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,918 - 3,408,981 (+)Ensembl
RefSeq Acc Id: ENST00000690471
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,961 - 3,408,981 (+)Ensembl
RefSeq Acc Id: ENST00000691197
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,925 - 3,408,978 (+)Ensembl
RefSeq Acc Id: ENST00000693396
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,380,961 - 3,408,978 (+)Ensembl
RefSeq Acc Id: NR_024248
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38113,380,961 - 3,409,148 (+)NCBI
HuRef113,140,562 - 3,168,757 (+)NCBI
CHM1_1113,401,190 - 3,429,379 (+)NCBI
T2T-CHM13v2.0113,426,355 - 3,454,559 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC TSSC2 COSMIC
Ensembl Genes ENSG00000223756 Ensembl
  ENSG00000290960 ENTREZGENE
Ensembl Transcript ENST00000533775 ENTREZGENE
GTEx ENSG00000223756 GTEx
  ENSG00000290960 GTEx
HGNC ID HGNC:12384 ENTREZGENE
Human Proteome Map TSSC2 Human Proteome Map
NCBI Gene TSSC2 ENTREZGENE
OMIM 608999 OMIM
PharmGKB PA37052 PharmGKB


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-02-18 TSSC2  tumor suppressing subtransferable candidate 2 (pseudogene)  TSSC2  tumor suppressing subtransferable candidate 2 pseudogene  Symbol and/or name change 5135510 APPROVED
2014-08-06 TSSC2  tumor suppressing subtransferable candidate 2 pseudogene    tumor suppressing subtransferable candidate 2  Symbol and/or name change 5135510 APPROVED